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119 results for “deep reefs”
Darwin Core Archive: Santa Barbara Channel fish surveys at deep reefs: Footprint, Piggy Bank, Anacapa Passage
The dataset contains fish surveys from deep natural reefs in the northern Santa Barbara Channel Islands, Southern California, mainly at reefs named Piggy Bank, Footprint (local names) and Anacapa Passage. Data collection began in 1995. Reefs are located at depths between 30 and 360 m (100 and 1,180 feet). Sampling was by the manned submersibles Delta and DualDeepworker and an unmanned Remotely Operated Vehicle (ROV). These sites included a wide range of such habitats as banks, ridges, and carbonate reefs, ranging in size from a few kilometers in length to less than a hectare in area. On these features, we focused on hard bottom macrohabitats, including kelp beds, boulder and cobble fields, and bedrock outcrops. Transects were not deliberately revisited; some reefs were surveyed as many as four times per year. All transects are 2 m wide; transect length varied (see data). Fishes were identified to lowest possible taxon (usually species), and verified against the WoRMs database (http://www.marinespecies.org/). This dataset is formatted as a Darwin Core Archive (DwC-A, occurrence core). This is a derived data product and see provenance for the source data.
Data for Paper "Scalable Semantic 3D Mapping of Coral Reefs with Deep Learning"
<p><strong>Example Data for DeepReefMap</strong></p> <p>This dataset contains input videos in MP4 format taken with GoPro Hero 10 Cameras in Reefs in the Red Sea to demonstrate the DeepReefMap tool, which is described in the paper "Scalable Semantic 3D Mapping of Coral Reefs with Deep Learning" by Sauder et al.</p> <p>It contains a directory for model checkpoints for semantic segmentation, and for the 3D SLAM component:</p> <p>```<br>checkpoints/<br> segmentation_net.pth<br> sfm_net.pth<br>```</p> <p>It also contains videos to run the reconstruction with. See the detailed instructions for running reconstructions in https://github.com/josauder/mee-deepreefmap</p> <p>```<br>input_videos/<br> GX_SINGLE_VIDEO.MP4<br> GX_VIDEO_1_OF_2.MP4<br> GX_VIDEO_2_OF_2.MP4<br>```</p>
Fig. 2 in The oldest representative of a modern deep-sea ophiacanthid brittle-star clade from Jurassic shallow-water coral reef sediments
Fig. 2. Ophiacanthid brittle−star Ophiosternle crinitum (Quenstedt, 1876), from the Reef debris beds within the Mergelstetten Formation (Hybonoticeras beckeri Zone, Lithacoceras ulmense Subzone), latest Kimmeridgian, Late Jurassic of Buchenbrunnen near Steinenfeld, S−Germany. A. GPIT/69/96−24 (holotype). Detail of proximal arm segments in ventral view without arm spines (A1) and with arm spines (A2). B. 96/23 (paratype). Arm fragment in ventral view (B1), proximal arm segments in lateral view (B2). C. GPIT/AS/56 (paratype). Complete specimen (C1) and detail of proximal to median arm segments (C2) in dorsal view.
Fig. 1 in The oldest representative of a modern deep-sea ophiacanthid brittle-star clade from Jurassic shallow-water coral reef sediments
Fig. 1. Ophiacanthid brittle−star Ophiosternle crinitum (Quenstedt, 1876), GPIT/69/96−24 (holotype), from the Reef debris beds within the Mergelstetten Formation (Hybonoticeras beckeri Zone, Lithacoceras ulmense Subzone), latest Kimmeridgian, Late Jurassic of Buchenbrunnen near Steinenfeld, S−Germany. A. Complete specimen in ventral view. B. Detail of dorsal side showing arm base and distal tip of radial shields. C. Detail of disc in dorsal view. D, E. Detail of disc in ventral view; photograph (D) and explanatory drawing (E).
Linked collectors and determiners for: Five new species of the damselfish genus Chromis (Perciformes: Labroidei: Pomacentridae) from deep coral reefs in the tropical western Pacific..
Natural history specimen data linked to collectors and determiners held within, "Five new species of the damselfish genus Chromis (Perciformes: Labroidei: Pomacentridae) from deep coral reefs in the tropical western Pacific.". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/3361576c-6ceb-4399-9aeb-204000446f87">https://bionomia.net/dataset/3361576c-6ceb-4399-9aeb-204000446f87</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/3361576c-6ceb-4399-9aeb-204000446f87">https://gbif.org/dataset/3361576c-6ceb-4399-9aeb-204000446f87</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: A new lineage of deep-reef gobies from the Caribbean, including two new species and one new genus (Teleostei: Gobiidae: Gobiosomatini).
Natural history specimen data linked to collectors and determiners held within, "A new lineage of deep-reef gobies from the Caribbean, including two new species and one new genus (Teleostei: Gobiidae: Gobiosomatini)". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/19a26be5-b7e5-40a5-94ff-5ee372c701d1">https://bionomia.net/dataset/19a26be5-b7e5-40a5-94ff-5ee372c701d1</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/19a26be5-b7e5-40a5-94ff-5ee372c701d1">https://gbif.org/dataset/19a26be5-b7e5-40a5-94ff-5ee372c701d1</a>. Formatted as a Frictionless Data package.
Data from: Blue Carbon stocks of Great Barrier Reef deep-water seagrasses
<p>Shallow-water seagrasses capture and store globally-significant quantities of organic carbon (OC), often referred to as 'Blue Carbon'; however, data is lacking on the importance of deep-water (>15 m) seagrasses as Blue Carbon sinks. We compared OC stocks from deep-, mid- and shallow-water seagrasses at Lizard Island within the Great Barrier Reef Lagoon. We found deep-water seagrasses (Halophila species) contained similar levels of OC as shallow-water species (e.g Halodule uninervis) (0.64 ± 0.08% and 0.9 ± 0.1 mg C cm3, 0.87 ± 0.19% and 1.3 ± 0.3 mg C cm3, respectively), despite being much sparser and smaller in stature. Deep-water seagrasses sediments contained significantly higher levels (~9-fold) of OC than surrounding bare areas. Inorganic carbon (CaCO3) levels were relatively high in deep-water seagrass sediments (8.2 ± 0.4%), and if precipitated from epiphytes within the meadow, could offset the potential CO2-sink capacity of these meadows. The δ13C signatures of sediment samples varied among depths and habitats (-10.9 and -17.0), reflecting contributions from autochthonous and allochthonous sources. If the OC stocks reported in this study are similar to deep-water Halophila meadows elsewhere within the GBR lagoon (total area 31,000 km2), then OC bound within this system is roughly estimated at 27.4 million tonnes.</p> <p>The dataset published in Dryad Digital Repository (<a href="http://dx.doi.org/10.5061/dryad.kj239"><span>doi:10.5061/dryad.kj239</span></a>), has been updated with the corrected data values for <span>mg <i>C</i><sub>org</sub> cm<sup>−3</sup></span>.</p>
Data from: Deep oxygen-depleted Red Sea coral reef depressions sustain resistant ecosystems
Open the record for dataset details and reuse information.
Data from: Blue Carbon stocks of Great Barrier Reef deep-water seagrasses
Open the record for dataset details and reuse information.
Santa Barbara Channel fish surveys at deep reefs: Footprint, Piggy Bank, Anacapa Passage
The dataset contains fish surveys from deep natural reefs in the northern Santa Barbara Channel Islands, Southern California, mainly at reefs named Piggy Bank, Footprint (local names) and Anacapa Passage. Data collection began in 1995. Reefs are located at depths between 30 and 360 m (100 and 1,180 feet). Sampling was by the manned submersibles Delta and DualDeepworker and an unmanned Remotely Operated Vehicle (ROV). These sites included a wide range of such habitats as banks, ridges, and carbonate reefs, ranging in size from a few kilometers in length to less than a hectare in area. On these features, we focused on hard bottom macrohabitats, including kelp beds, boulder and cobble fields, and bedrock outcrops. Transects were not deliberately revisited; some reefs were surveyed as many as four times per year. All transects are 2 m wide; transect length varied (see data). The dataset includes two tables: (1) the fish counts at Piggy Bank, Footprint, and Anacapa Passage; and (2), the habitat associated with each of the survey segments. Fishes were identified to lowest possible taxon (usually species), and verified against the WoRMs database (http://www.marinespecies.org/).
The visual ecology of Holocentridae, a nocturnal coral reef fish family with a deep-sea-like multibank retina
<p>The visual systems of teleost fishes usually match their habitats and lifestyles. Since coral reefs are bright and colourful environments, the visual systems of their diurnal inhabitants have been more extensively studied than those of nocturnal species. In order to fill this knowledge gap, we conducted a detailed investigation of the visual system of the nocturnal reef fish family Holocentridae. Results showed that the visual system of holocentrids is well adapted to their nocturnal lifestyle with a rod-dominated retina. Surprisingly, rods in all species were arranged into 6-17 well-defined banks, a feature most commonly found in deep-sea fishes, that may increase the light sensitivity of the eye and/or allow colour discrimination in dim-light. Holocentrids also have the potential for dichromatic colour vision during the day with the presence of at least two spectrally different cone types: single cones expressing the blue-sensitive <i>SWS2A</i> gene, and double cones expressing one or two green-sensitive <i>RH2</i> genes. Some differences were observed between the two subfamilies, with Holocentrinae (squirrelfish) having a slightly more developed photopic visual system than Myripristinae (soldierfish). Moreover, retinal topography of both ganglion cells and cone photoreceptors showed specific patterns for each cell type, likely highlighting different visual demands at different times of the day, such as feeding. Overall, their well-developed scotopic visual systems and the ease of catching and maintaining holocentrids in aquaria, make them ideal models to investigate teleost dim-light vision and more particularly shed light on the function of the multibank retina and its potential for dim-light colour vision.</p>
Data from: Repeated invasions into the twilight zone: evolutionary origins of a novel assemblage of fishes from deep Caribbean reefs
Mesophotic and deeper reefs of the tropics are poorly known and underexplored ecosystems worldwide. Collectively referred to as the 'twilight zone', depths below ~30–50 m are home to many species of reef fishes that are absent from shallower depths, including many undescribed and endemic species. We currently lack even a basic understanding of the diversity and evolutionary origins of fishes on tropical mesophotic reefs. Recent submersible collections in the Caribbean have provided new specimens that are enabling phylogenetic reconstructions that incorporate deep-reef representatives of tropical fish genera. Here, we investigate evolutionary depth transitions in the family Gobiidae (gobies), the most diverse group of tropical marine fishes. Using divergence-time estimation coupled with stochastic character mapping to infer the timing of shallow-to-deep habitat transitions in gobies, we demonstrate at least four transitions from shallow to mesophotic depths. Habitat transitions occurred in two broad time periods (Miocene, Pliocene–Pleistocene), and may have been linked to the availability of underutilized niches, as well as the evolution of morphological/behavioural adaptations for life on deep reefs. Further, our analysis shows that at least three evolutionary lineages that invaded deep habitats subsequently underwent speciation, reflecting another unique mode of radiation within the Gobiidae. Lastly, we synthesize depth distributions for 95 species of Caribbean gobies, which reveal major bathymetric faunal breaks at the boundary between euphotic and mesophotic reefs. Ultimately, our study is the first rigorous investigation into the origin of Caribbean deep-reef fishes and provides a framework for future studies that utilize rare, deep-reef specimens.
FIGURE 12 in First record of Tanaidacea (Crustacea) from a deep-sea coral reef in the Gulf of Guinea
FIGURE 12. Cryptocopoides obaloba sp. nov., female. A, cheliped; B, pereopod-1; C, pereopod-2; D, pereopod-3; E, pereopod-4; F, pereopod-5; G, pereopod-6; H, pleopod; I, uropod. Scale bars: 0.1 mm.
FIGURE 13 in First record of Tanaidacea (Crustacea) from a deep-sea coral reef in the Gulf of Guinea
FIGURE 13. Pseudotanais (Pseudotanais) artoo sp. nov., holotype female. A, body lateral view; B, body dorsal view. Scale bar: 0.5 mm.
FIGURE 8 in First record of Tanaidacea (Crustacea) from a deep-sea coral reef in the Gulf of Guinea
FIGURE 8. Bathyleptochelia chingilingi sp. nov., female. A, antennule; B, antenna; C, labrum; D, left mandible incisor; D', molar process; E, right mandible incisor; F, maxillule endite; G, maxillule palp; H, maxilla; I, labium; J, maxilliped; J', maxilliped endite; K, epignath. Scale bar: 0.1 mm.
FIGURE 4 in First record of Tanaidacea (Crustacea) from a deep-sea coral reef in the Gulf of Guinea
FIGURE 4. Calozodion pabisi sp. nov., female. A, antennule; B, antenna; E, cheliped. Male. C, antennule; D, antenna; F, cheliped. Scale bar: 0.1 mm.
FIGURE 11 in First record of Tanaidacea (Crustacea) from a deep-sea coral reef in the Gulf of Guinea
FIGURE 11. Cryptocopoides obaloba sp. nov., female. A, antennule; B, antenna; C, labrum; D, right mandible; E, maxillule; F, labium; G, maxilliped. Scale bar: 0.1 mm.
FIGURE 7 in First record of Tanaidacea (Crustacea) from a deep-sea coral reef in the Gulf of Guinea
FIGURE 7. Bathyleptochelia chingilingi sp. nov., holotype female. A, C, body dorsal view; B, body lateral view. Scale bar: 1 mm.
FIGURE 15 in First record of Tanaidacea (Crustacea) from a deep-sea coral reef in the Gulf of Guinea
FIGURE 15. Pseudotanais (Pseudotanais) artoo sp. nov., female. A, cheliped; B, pereopod-1; C, pereopod-2; D, pereopod-3; E, pereopod-4; F, pereopod-5; G, pereopod-6; H, pleopod; I, uropod. Scale bars: 0.1 mm.
FIGURE 14 in First record of Tanaidacea (Crustacea) from a deep-sea coral reef in the Gulf of Guinea
FIGURE 14. Pseudotanais (Pseudotanais) artoo sp. nov., female. A, antennule; B, antenna; C, right mandible; D, left mandible; E, maxillule, endite; F, maxillule, palp; G, labium; H, maxilliped endite; H', maxilliped palp; I, epignath. Scale bar: a = 0.1 mm for A–B; b = 0.1 mm for C–I.
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Allen Brain Atlas
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.